Ecosystem modelling of tropical wetlands

4.1 Background Modelling is essential for enhancing our understanding of the functioning of tropical wetland ecosystems, and for simulating future trajectories and testing for system thresholds. Anthropogenic activities such as drainage and land-use change can be integrated in models and their impacts on fluxes of greenhouse gas concentrations simulated. Models can also be used to test the response of peatlands and mangroves to climate extremes, variability and change, and to estimate reference levels and greenhouse gas emissions scenarios in the framework of climate change mitigation projects such as REDD+. In coastal settings, models are used to explore wetland resilience to sea-level rise. Finally, models can also be developed to support the decision making process by providing policyrelevant information on the consequences and trade-offs of adopting different management and climate scenarios

Two-dimensional echocardiographic diagnosis of pulmonary artery sling in infancy

The vascular anomaly in which the left pulmonary artery arises from the right pulmonary artery and passes posteriorly and leftward between the trachea and the esophagus is termed a pulmonary artery sling. Two-dimensional echocardiograms were performed in five infants with this anomaly and successfully identified it in four, including one patient with truncus arteriosus communis.The subxiphoid long-axis sweep was useful in identifying the origin and initial course of the left pulmonary artery, and short-axis subxiphoid views showed both its origin from the right pulmonary artery and its initial posterior course. Angulation toward the cardiac apex displayed the right pulmonary artery in cross section anteriorly and the left pulmonary artery in cross section posteriorly. A transducer orientation midway between the subxiphoid long- and short-axis positions was helpful in distinguishing a large right upper lobe branch of the right pulmonary artery from a pulmonary artery sling. The precordial short-axis plane displayed the origin and initial posterior and leftward course of the left pulmonary artery, while the bifurcation of the main pulmonary artery, usually easily seen in this view, could not be demonstrated.Two-dimensional echocardiography offers a rapid, noninvasive diagnosis of pulmonary artery sling in infants

The influence of electromagnetic fields from two commercially available water-treatment devices on calcium carbonate precipitation

CaCO3 precipitation profiles, tracked by absorbance at 350 nm, showing accelerated precipitation upon exposure of the parent solutions to a pulsed electromagnetic field (PEMF) from a commercially available device.</p

Decadal predictability of North Atlantic blocking and the NAO

© The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Athanasiadis, P. J., Yeager, S., Kwon, Y. O., Bellucci, A., Smith, D. W., & Tibaldi, S. Decadal predictability of North Atlantic blocking and the NAO. Npj Climate and Atmospheric Science, 3(1), (2020): 20, doi:10.1038/s41612-020-0120-6.Can multi-annual variations in the frequency of North Atlantic atmospheric blocking and mid-latitude circulation regimes be skilfully predicted? Recent advances in seasonal forecasting have shown that mid-latitude climate variability does exhibit significant predictability. However, atmospheric predictability has generally been found to be quite limited on multi-annual timescales. New decadal prediction experiments from NCAR are found to exhibit remarkable skill in reproducing the observed multi-annual variations of wintertime blocking frequency over the North Atlantic and of the North Atlantic Oscillation (NAO) itself. This is partly due to the large ensemble size that allows the predictable component of the atmospheric variability to emerge from the background chaotic component. The predictable atmospheric anomalies represent a forced response to oceanic low-frequency variability that strongly resembles the Atlantic Multi-decadal Variability (AMV), correctly reproduced in the decadal hindcasts thanks to realistic ocean initialization and ocean dynamics. The occurrence of blocking in certain areas of the Euro-Atlantic domain determines the concurrent circulation regime and the phase of known teleconnections, such as the NAO, consequently affecting the stormtrack and the frequency and intensity of extreme weather events. Therefore, skilfully predicting the decadal fluctuations of blocking frequency and the NAO may be used in statistical predictions of near-term climate anomalies, and it provides a strong indication that impactful climate anomalies may also be predictable with improved dynamical models.This study received support by the Blue-Action project (European Union’s Horizon 2020 research and innovation program, #727852). A.B. was supported by the H2020 EUCP (grant no. GA 776613) project. S.Y. acknowledges the support of National Science Foundation (NSF) grants OPP-1737377 and OCE-1243015. NCAR is a major facility sponsored by NSF under Cooperative Agreement No. 1852977. The CESM-DPLE was generated using computational resources provided by the National Energy Research Scientific Computing Center, which is supported by the Office of Science of the U.S. Department of Energy under Contract DE-AC02-05CH11231, as well as by an Accelerated Scientific Discovery grant for Cheyenne (https://doi.org/10.5065/D6RX99HX) that was awarded by NCAR’s Computational and Information Systems Laboratory. Y.-O.K. was supported by the DOE Regional and Global Model Analysis Program (DE-SC0019492), and the NSF Arctic Natural Science Program (OPP-1736738) and Climate and Large-scale Dynamics Program (AGS-1355339)

Diversity in the Glucose Transporter-4 Gene (SLC2A4) in Humans Reflects the Action of Natural Selection along the Old-World Primates Evolution

BACKGROUND: Glucose is an important source of energy for living organisms. In vertebrates it is ingested with the diet and transported into the cells by conserved mechanisms and molecules, such as the trans-membrane Glucose Transporters (GLUTs). Members of this family have tissue specific expression, biochemical properties and physiologic functions that together regulate glucose levels and distribution. GLUT4 -coded by SLC2A4 (17p13) is an insulin-sensitive transporter with a critical role in glucose homeostasis and diabetes pathogenesis, preferentially expressed in the adipose tissue, heart muscle and skeletal muscle. We tested the hypothesis that natural selection acted on SLC2A4. METHODOLOGY/PRINCIPAL FINDINGS: We re-sequenced SLC2A4 and genotyped 104 SNPs along a approximately 1 Mb region flanking this gene in 102 ethnically diverse individuals. Across the studied populations (African, European, Asian and Latin-American), all the eight common SNPs are concentrated in the N-terminal region upstream of exon 7 ( approximately 3700 bp), while the C-terminal region downstream of intron 6 ( approximately 2600 bp) harbors only 6 singletons, a pattern that is not compatible with neutrality for this part of the gene. Tests of neutrality based on comparative genomics suggest that: (1) episodes of natural selection (likely a selective sweep) predating the coalescent of human lineages, within the last 25 million years, account for the observed reduced diversity downstream of intron 6 and, (2) the target of natural selection may not be in the SLC2A4 coding sequence. CONCLUSIONS: We propose that the contrast in the pattern of genetic variation between the N-terminal and C-terminal regions are signatures of the action of natural selection and thus follow-up studies should investigate the functional importance of different regions of the SLC2A4 gene

The CCSM4 ocean component

Author Posting. © American Meteorological Society, 2012. This article is posted here by permission of American Meteorological Society for personal use, not for redistribution. The definitive version was published in Journal of Climate 25 (2012): 1361–1389, doi:10.1175/JCLI-D-11-00091.1.The ocean component of the Community Climate System Model version 4 (CCSM4) is described, and its solutions from the twentieth-century (20C) simulations are documented in comparison with observations and those of CCSM3. The improvements to the ocean model physical processes include new parameterizations to represent previously missing physics and modifications of existing parameterizations to incorporate recent new developments. In comparison with CCSM3, the new solutions show some significant improvements that can be attributed to these model changes. These include a better equatorial current structure, a sharper thermocline, and elimination of the cold bias of the equatorial cold tongue all in the Pacific Ocean; reduced sea surface temperature (SST) and salinity biases along the North Atlantic Current path; and much smaller potential temperature and salinity biases in the near-surface Pacific Ocean. Other improvements include a global-mean SST that is more consistent with the present-day observations due to a different spinup procedure from that used in CCSM3. Despite these improvements, many of the biases present in CCSM3 still exist in CCSM4. A major concern continues to be the substantial heat content loss in the ocean during the preindustrial control simulation from which the 20C cases start. This heat loss largely reflects the top of the atmospheric model heat loss rate in the coupled system, and it essentially determines the abyssal ocean potential temperature biases in the 20C simulations. There is also a deep salty bias in all basins. As a result of this latter bias in the deep North Atlantic, the parameterized overflow waters cannot penetrate much deeper than in CCSM3.NCAR is sponsored by the National Science Foundation. The CCSM is also sponsored by the Department of Energy. SGY was supported by the NOAA Climate Program Office under Climate Variability and Predictability Program Grant NA09OAR4310163.2012-09-0

Low-level dissolved organic carbon subsidies drive a trophic upsurge in a boreal stream

1. Energy pathways in stream food webs are often driven by allochthonous basal resources. However, allochthonous dissolved organic carbon (DOC) is generally viewed as a minor if not insignificant basal resource because much of the DOC pool comprises high molecular weight, recalcitrant compounds and is inefficiently incorporated into biomass. Nevertheless, there is increasing evidence that the relatively small, labile fraction of DOC may indeed fuel microbial activity to a level that stimulates productivity across multiple trophic levels, resulting in a trophic upsurge. Here, we tested the trophic upsurge hypothesis by subsidising the labile DOC pool of an Alaskan boreal stream that had relatively high nutrient availability but low levels of naturally occurring DOC. 2. We continuously added ecologically relevant (0.250 mg C/L, c. 10% increase above ambient bulk DOC) concentrations of labile DOC (acetate-C) for 62 days to a treatment reach that was statistically indistinguishable in its channel form and chemistry from an upstream reference reach. We measured responses of pe-riphyton production and biomass, whole reach metabolism and nutrient uptake, benthic invertebrate abundances, and juvenile salmonid (Dolly Varden, Salvelinus malma) abundance and growth. 3. Measurements of basal ecosystem responses collectively indicated increased en-ergy mobilization at the base of the food web in response to labile DOC addition. Periphyton bacterial production in the treatment reach was generally >1.5× refer-ence reach values, and periphyton ash-free dry mass, chlorophyll-a, and chloro-phyll-a:ash-free dry mass were all greater in the treatment reach by the end of the study. Throughout dosing, ecosystem respiration was 1.3× greater in the treat-ment reach and dissolved inorganic nitrogen uptake was greater in the treatment reach on eight out of nine measurements. 4. Benthic invertebrate counts, dominated by Baetis spp. and Chironomidae, were c. 4× greater after 28 dosing days and c. 8× greater after 56 days in the upstream portion of the treatment reach. Abundance generally declined with increasing dis-tance from the dosing station. Dolly Varden fry and parr age classes were nearly 2× more abundant in the upstream portion of the treatment reach than in any section of the reference reach and also declined with increasing distance from the dosing station. Further, Dolly Varden tagged with passive integrated transponders prior to the experiment had significantly higher instantaneous growth rates in the treatment reach than those recaptured in the reference reach. 5. The strong consumer responses to small quantities of labile DOC mirrored sig-nificant treatment reach increases in basal ecosystem function and therefore demonstrated a response consistent with a trophic upsurge. Terrestrial DOC has historically been viewed as contributing little to metazoan consumers, instead modulating the influence of nutrients and being respired out of a disconnected microbial loop. Because we dosed the treatment reach with a relevant concentra-tion of labile DOC, based on measurements in nearby peatland-draining streams, we suggest that terrestrial DOC deserves more attention as a basal resource for whole food webs, akin to nutrients fuelling green (autochthonous) pathways.Alaska Sustainable Salmon Fund, Grant/Award Number: 4470

cis sequence effects on gene expression

<p>Abstract</p> <p>Background</p> <p>Sequence and transcriptional variability within and between individuals are typically studied independently. The joint analysis of sequence and gene expression variation (genetical genomics) provides insight into the role of linked sequence variation in the regulation of gene expression. We investigated the role of sequence variation in <it>cis </it>on gene expression (<it>cis </it>sequence effects) in a group of genes commonly studied in cancer research in lymphoblastoid cell lines. We estimated the proportion of genes exhibiting <it>cis </it>sequence effects and the proportion of gene expression variation explained by <it>cis </it>sequence effects using three different analytical approaches, and compared our results to the literature.</p> <p>Results</p> <p>We generated gene expression profiling data at N = 697 candidate genes from N = 30 lymphoblastoid cell lines for this study and used available candidate gene resequencing data at N = 552 candidate genes to identify N = 30 candidate genes with sufficient variance in both datasets for the investigation of <it>cis </it>sequence effects. We used two additive models and the haplotype phylogeny scanning approach of Templeton (Tree Scanning) to evaluate association between individual SNPs, all SNPs at a gene, and diplotypes, with log-transformed gene expression. SNPs and diplotypes at eight candidate genes exhibited statistically significant (p < 0.05) association with gene expression. Using the literature as a "gold standard" to compare 14 genes with data from both this study and the literature, we observed 80% and 85% concordance for genes exhibiting and not exhibiting significant <it>cis </it>sequence effects in our study, respectively.</p> <p>Conclusion</p> <p>Based on analysis of our results and the extant literature, one in four genes exhibits significant <it>cis </it>sequence effects, and for these genes, about 30% of gene expression variation is accounted for by <it>cis </it>sequence variation. Despite diverse experimental approaches, the presence or absence of significant <it>cis </it>sequence effects is largely supported by previously published studies.</p